Disclosed is a vibration control apparatus of a driving system for a vehicle. More specifically, a toque command generating portion receives a demand torque from a driver and generates a torque command for operating a motor. A torque control portion receives the torque command from the toque command generating portion, collects information on exterior disturbances, and controls an actual torque of the motor accordingly. Lastly, a damping portion extracts and filters a vibration element generated due to operation of the motor by control of the torque control portion and generates a target torque to eliminate vibrations from the motor.